def main_with_args(args):
print(title_string)
if len(args) < 1:
parser.print_usage()
print(description_string)
return
parameters = parser.parse_args(args)
p_dict = vars(parameters)
if p_dict['debug']:
print('Parsed parameters:')
print(p_dict)
action = p_dict['ldpred_action']
if action == 'coord':
coord_genotypes.main(p_dict)
elif action == 'gibbs':
LDpred_gibbs.main(p_dict)
elif action == 'inf':
LDpred_inf.main(p_dict)
elif action == 'p+t':
LD_pruning_thres.main(p_dict)
elif action == 'score':
validate.main(p_dict)
elif action == 'all':
pass
else:
parser.print_help(sys.stderr)
sys.exit(1)
def main():
if len(sys.argv)==1:
print ('ERROR: No options provided.\n')
parser.print_help(sys.stderr)
sys.exit(1)
parameters = parser.parse_args()
p_dict= vars(parameters)
if p_dict['debug']:
print ('Parsed parameters:')
print(p_dict)
action = p_dict['ldpred_action']
if action=='coord':
coord_genotypes.main(p_dict)
elif action=='gibbs':
LDpred_gibbs.main(p_dict)
elif action=='inf':
LDpred_inf.main(p_dict)
elif action=='p+t':
LD_pruning_thres.main(p_dict)
elif action=='score':
validate.main(p_dict)
elif action=='ldfile':
ld.get_ld_dict(p_dict['cf'], p_dict['ldf'], p_dict['ldr'],wallaceld=True)
elif action=='all':
pass
def main():
parameters = parser.parse_args()
p_dict = vars(parameters)
if p_dict['debug']:
print('Parsed parameters:')
print(p_dict)
action = p_dict['ldpred_action']
if action == 'coord':
coord_genotypes.main(p_dict)
elif action == 'gibbs':
LDpred_gibbs.main(p_dict)
elif action == 'inf':
LDpred_inf.main(p_dict)
elif action == 'p+t':
LD_pruning_thres.main(p_dict)
elif action == 'score':
validate.main(p_dict)
elif action == 'all':
pass
def main():
print(title_string)
if len(sys.argv)==1:
parser.print_help(sys.stderr)
sys.exit(1)
parameters = parser.parse_args()
p_dict= vars(parameters)
if p_dict['debug']:
print ('Parsed parameters:')
print(p_dict)
action = p_dict['ldpred_action']
if action=='coord':
coord_genotypes.main(p_dict)
elif action=='gibbs':
LDpred_gibbs.main(p_dict)
elif action=='inf':
LDpred_inf.main(p_dict)
elif action=='p+t':
LD_pruning_thres.main(p_dict)
elif action=='score':
validate.main(p_dict)
elif action=='all':
pass
def main():
print(title_string)
if len(sys.argv) == 1:
parser.print_help(sys.stderr)
sys.exit(1)
parameters = parser.parse_args()
p_dict = vars(parameters)
if p_dict['debug']:
print('Parsed parameters:')
print(p_dict)
action = p_dict['ldpred_action']
if action == 'coord':
coord_genotypes.main(p_dict)
elif action == 'gibbs':
LDpred_gibbs.main(p_dict)
elif action == 'inf':
LDpred_inf.main(p_dict)
elif action == 'p+t':
LD_pruning_thres.main(p_dict)
elif action == 'score':
validate.main(p_dict)
elif action == 'all':
pass